New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	3248814 =	35 (1.190)	4 (0.150)	4/266	3.5	12.0%	noncoding (3248814/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	3248839 =	26 (0.950)					noncoding (3248839/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CAGAGCGCCGCCGCAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGC  >  NC_000913_3_vch_tpiA/3248691‑3248985                                                                                                                                                     |                                                                                                                                                   cAGAGCGCCGCCGCAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTAACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGaaa                                                                                                                                                    <  1:339751/149‑1 (MQ=255)        ccgccgcAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATAtca                                                                                                                                             <  1:75010/149‑1 (MQ=255)           ccgcAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGAACAATAACAATCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAAAAGAtcactc                                                                                                                                          >  1:114536/1‑149 (MQ=255)            cgcAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATCtcactcc                                                                                                                                         >  2:210011/1‑148 (MQ=255)                 aaGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACACTCATAGCTTCGGATAACTTCCTGTTGTCCGAAACATATCACTCACTTTg                                                                                                                                    >  2:99511/1‑149 (MQ=255)                           cGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCAc                                                                                                                          <  1:459763/149‑1 (MQ=255)                                   cATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACtt                                                                                                                  >  1:413615/1‑148 (MQ=255)                                       gCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTa                                                                                                              >  1:304342/1‑149 (MQ=255)                                                cTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATg                                                                                                     >  2:290289/1‑149 (MQ=255)                                                   catcatTGGGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAgg                                                                                                  <  2:40148/149‑1 (MQ=255)                                                   catcatTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAgg                                                                                                  <  2:470513/149‑1 (MQ=255)                                                        ttGCGCAGCAGGACAAGAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCggtg                                                                                             <  1:416658/149‑1 (MQ=255)                                                         tGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCggtgg                                                                                            <  2:148658/149‑1 (MQ=255)                                                         tGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACCCTCATCGCTTTGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCggtgg                                                                                            <  1:49601/149‑1 (MQ=255)                                                         tGCGCAGCAGGACAACAACAGTCAGGCGATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCggtgg                                                                                            <  2:396654/149‑1 (MQ=255)                                                          gcgcAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCggtggt                                                                                           <  1:290289/149‑1 (MQ=255)                                                          gcgcAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGACggtggt                                                                                           >  1:320047/1‑149 (MQ=255)                                                               gcagGACCATAACAGTCAGGCTATGCAGTGGCTTACCCGGTTACGGGATAACTCTCATCGCTTCTGATAACTTCCTGTTATCCGCAACATCTCACTCATTTTGGTGATTTCACCGTATCTTTCTATGATTAATGAGGCTGTGGTTAact                                                                                      <  2:432310/149‑2 (MQ=255)                                                                                         aGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAac                                                                                       >  1:137044/1‑122 (MQ=255)                                                                                         aGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAac                                                                                       <  2:137044/122‑1 (MQ=255)                                                                                           tGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGtt                                                          <  1:446972/149‑1 (MQ=255)                                                                                                        caagtgATACCCCTCATCGCCTTGTATAACGTCCTGTTATCCGAAACATATCACTCACTTTGTGGATTTCACCGCAACTGTCTATTAATAAGCAGGCAGCAACTAACACTACCGCTTCCATCTCTGGACAATCCCTCCTTTGTACTAgg                                             <  2:285647/144‑1 (MQ=255)                                                                                                          cGGGATAACTCTCCTCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTc                                           <  1:187633/149‑1 (MQ=255)                                                                                                           gggATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTcc                                          >  2:33791/1‑149 (MQ=255)                                                                                                                  ctctCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATcac                                   >  2:21855/1‑149 (MQ=255)                                                                                                                     tcATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACAAt                                <  1:367069/149‑1 (MQ=255)                                                                                                                                     caggaagTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACaa                                 <  2:41274/126‑1 (MQ=255)                                                                                                                                     caggaagTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACaa                                 >  1:41274/7‑132 (MQ=255)                                                                                                                                                   aaaCATATCACTCACGTTGATGGTTTCACCGTAACTGTCTATGATTAATGCGGCGGTGGTTCACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTGATAGGTACCATTGACATTATAAGATTCAAGAATGAATTACCCCATCGc  >  2:237984/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                   CAGAGCGCCGCCGCAAAAGCGGTCCTCGACAGAACATTGCCCCATGGCTACATCATTGCGCAGCAGGACAATAACAGTCAGGCTATGCAGTGGCTGACCCGGTTACGGGATAACTCTCATCGCTTCGGATAACTTCCTGTTATCCGAAACATATCACTCACTTTGGTGATTTCACCGTAACTGTCTATGATTAATGAGGCGGTGGTTAACACTACCGCTTCGTTGTCTGGACAATCGTTCCTTTGTAATAGGTCCGAATCACAATGGAAGGTTCAAGAATGAAATACCGCATCGC  >  NC_000913_3_vch_tpiA/3248691‑3248985

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.